scholarly journals Approximate Bayesian inference for multivariate point pattern analysis in disease mapping

2020 ◽  
Author(s):  
Francisco Palmí‐Perales ◽  
Virgilio Gómez‐Rubio ◽  
Gonzalo López‐Abente ◽  
Rebeca Ramis ◽  
José Miguel Sanz‐Anquela ◽  
...  
Keyword(s):  
Bayesian Inference ◽  
Pattern Analysis ◽  
Disease Mapping ◽  
Point Pattern Analysis ◽  
Point Pattern ◽  
Approximate Bayesian ◽  
Multivariate Point ◽  
Approximate Bayesian Inference

On fitting spatio-temporal disease mapping models using approximate Bayesian inference

2014 ◽  
Vol 23 (6) ◽  
pp. 507-530 ◽  
Author(s):  
María Dolores Ugarte ◽  
Aritz Adin ◽  
Tomas Goicoa ◽  
Ana Fernandez Militino
Keyword(s):  
Bayesian Inference ◽  
Disease Mapping ◽  
Spatio Temporal ◽  
Approximate Bayesian ◽  
Mapping Models ◽  
Approximate Bayesian Inference

scholarly journals Comparing two sequential Monte Carlo samplers for exact and approximate Bayesian inference on biological models

2017 ◽  
Vol 14 (134) ◽  
pp. 20170340 ◽  
Author(s):  
Aidan C. Daly ◽  
Jonathan Cooper ◽  
David J. Gavaghan ◽  
Chris Holmes
Keyword(s):  
Bayesian Inference ◽  
Bayesian Methods ◽  
Sequential Monte Carlo ◽  
Model Parameters ◽  
Biological Models ◽  
Exact Inference ◽  
Modelling Studies ◽  
Approximate Bayesian ◽  
Approximate Bayesian Inference ◽  
Abc Methods

Bayesian methods are advantageous for biological modelling studies due to their ability to quantify and characterize posterior variability in model parameters. When Bayesian methods cannot be applied, due either to non-determinism in the model or limitations on system observability, approximate Bayesian computation (ABC) methods can be used to similar effect, despite producing inflated estimates of the true posterior variance. Owing to generally differing application domains, there are few studies comparing Bayesian and ABC methods, and thus there is little understanding of the properties and magnitude of this uncertainty inflation. To address this problem, we present two popular strategies for ABC sampling that we have adapted to perform exact Bayesian inference, and compare them on several model problems. We find that one sampler was impractical for exact inference due to its sensitivity to a key normalizing constant, and additionally highlight sensitivities of both samplers to various algorithmic parameters and model conditions. We conclude with a study of the O'Hara–Rudy cardiac action potential model to quantify the uncertainty amplification resulting from employing ABC using a set of clinically relevant biomarkers. We hope that this work serves to guide the implementation and comparative assessment of Bayesian and ABC sampling techniques in biological models.

scholarly journals Spatial point-pattern analysis as a powerful tool in identifying pattern-process relationships in plant ecology: an updated review

2021 ◽  
Vol 10 (1) ◽  
Author(s):  
Mariem Ben-Said
Keyword(s):  
Spatial Patterns ◽  
Pattern Analysis ◽  
Biotic Interactions ◽  
Plant Ecology ◽  
Point Pattern Analysis ◽  
Point Pattern ◽  
Summary Statistics ◽  
Spatial Point Pattern ◽  
Spatial Point ◽  
Spatial Point Pattern Analysis

Abstract Background Ecological processes such as seedling establishment, biotic interactions, and mortality can leave footprints on species spatial structure that can be detectable through spatial point-pattern analysis (SPPA). Being widely used in plant ecology, SPPA is increasingly carried out to describe biotic interactions and interpret pattern-process relationships. However, some aspects are still subjected to a non-negligible debate such as required sample size (in terms of the number of points and plot area), the link between the low number of points and frequently observed random (or independent) patterns, and relating patterns to processes. In this paper, an overview of SPPA is given based on rich and updated literature providing guidance for ecologists (especially beginners) on summary statistics, uni-/bi-/multivariate analysis, unmarked/marked analysis, types of marks, etc. Some ambiguities in SPPA are also discussed. Results SPPA has a long history in plant ecology and is based on a large set of summary statistics aiming to describe species spatial patterns. Several mechanisms known to be responsible for species spatial patterns are actually investigated in different biomes and for different species. Natural processes, plant environmental conditions, and human intervention are interrelated and are key drivers of plant spatial distribution. In spite of being not recommended, small sample sizes are more common in SPPA. In some areas, periodic forest inventories and permanent plots are scarce although they are key tools for spatial data availability and plant dynamic monitoring. Conclusion The spatial position of plants is an interesting source of information that helps to make hypotheses about processes responsible for plant spatial structures. Despite the continuous progress of SPPA, some ambiguities require further clarifications.

Spatiotemporal Point Pattern Analysis Using Ripley's K Function

2017 ◽  
pp. 155-176
Author(s):  
Alexander Hohl ◽  
Minrui Zheng ◽  
Wenwu Tang ◽  
Eric Delmelle ◽  
Irene Casas
Keyword(s):  
Pattern Analysis ◽  
Point Pattern Analysis ◽  
Point Pattern ◽  
Ripley’S K Function ◽  
Ripley’S K ◽  
Ripley's K ◽  
K Function
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